BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 014242
(428 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B87|A Chain A, Crystal Structure Of Human Dna Cross-Link Repair 1a
Length = 367
Score = 331 bits (849), Expect = 4e-91, Method: Compositional matrix adjust.
Identities = 158/310 (50%), Positives = 218/310 (70%), Gaps = 3/310 (0%)
Query: 118 RSCPFYKKIPGTPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSHGPIYCSPLTAR 177
++CPFYKKIPGT FTVDAF+YG ++GC+AYFLTHFH DHY GL K ++ P+YCS +T
Sbjct: 26 KTCPFYKKIPGTGFTVDAFQYGVVEGCTAYFLTHFHSDHYAGLSKHFTF-PVYCSEITGN 84
Query: 178 LVRMCLLVNPSYIHPLELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQCYLHTGDFR 237
L++ L V YIHPL L+TE +++GVKV LL+ANHCPGA +I F L +G LHTGDFR
Sbjct: 85 LLKNKLHVQEQYIHPLPLDTECIVNGVKVVLLDANHCPGAVMILFYLPNGTVILHTGDFR 144
Query: 238 ASRLMQSYPLLVNHRVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTKNCLKKQPKTLVVV 297
A M+ LL + +V++LYLDTTYC+P+Y FPS+++V+ + + + P LVV
Sbjct: 145 ADPSMER-SLLADQKVHMLYLDTTYCSPEYTFPSQQEVIRFAINTAFEAVTLNPHALVVC 203
Query: 298 GAYSIGKESVFLAISKALGVKIYANASRRRVLQSFDWPELSGNLCTQGNDTLLHVLPMSS 357
G YSIGKE VFLAI+ LG K+ + + + LQ + PE++ + T +L+H+LPM
Sbjct: 204 GTYSIGKEKVFLAIADVLGSKVGMSQEKYKTLQCLNIPEINSLITTDMCSSLVHLLPMMQ 263
Query: 358 LKFETLKDYLKPYGNQYAAVLAFRPTGWTYSETVGNQLDLIRPLSRGNITIYGVPYSEHS 417
+ F+ L+ +LK G +Y +LAFRPTGWT+S D+I P ++GNI+IYG+PYSEHS
Sbjct: 264 INFKGLQSHLKKCGGKYNQILAFRPTGWTHSNKFTRIADVI-PQTKGNISIYGIPYSEHS 322
Query: 418 SFTELREFVQ 427
S+ E++ FVQ
Sbjct: 323 SYLEMKRFVQ 332
>pdb|3ZDK|A Chain A, Crystal Structure Of Human 5' Exonuclease Apollo
Length = 336
Score = 141 bits (356), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 152/309 (49%), Gaps = 36/309 (11%)
Query: 126 IPGTPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSHGPIYCSPLTARLVRMCLLV 185
IP TP VD + +FL+H H DH GL W+ P+YCSP+TA L+ L V
Sbjct: 7 IPHTPIAVDFWSLRRAGTARLFFLSHMHSDHTVGLSSTWAR-PLYCSPITAHLLHRHLQV 65
Query: 186 NPSYIHPLELNTEHVI-------DGVKVTLLEANHCPGAALIHFRLQDGQCYLHTGDFRA 238
+ +I LE+ HV+ + + VTLL+ANHCPG+ + F G L+TGDFR
Sbjct: 66 SKQWIQALEVGESHVLPLDEIGQETMTVTLLDANHCPGSVMFLFEGYFG-TILYTGDFRY 124
Query: 239 SRLMQSYP-LLVNHRVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTKNCLKKQPKTLVVV 297
+ M P L + +++ LYLD T CNP PS+++ + +V+L ++K P+ + +
Sbjct: 125 TPSMLKEPALTLGKQIHTLYLDNTNCNPALVLPSRQEAAHQIVQL----IRKHPQHNIKI 180
Query: 298 GAYSIGKESVFLAISKALGVKIYANASRRRVLQSFDWPELSGNLCTQGNDTLLHVLPMSS 357
G YS+GKES+ + AL + + S RR L+ L+ + +H +
Sbjct: 181 GLYSLGKESLLEQL--ALEFQTWVVLSPRR-LELVQLLGLADVFTVEEKAGRIHAVDHME 237
Query: 358 LKFETLKDYLKPYGNQYAAVLAFRPTGWTYSETVGNQLDLIRPLSRGNITIYGVPYSEHS 417
+ + + NQ +A PT R + + I+ +PYS+HS
Sbjct: 238 ICHSNMLRW-----NQTHPTIAILPTS--------------RKIHSSHPDIHVIPYSDHS 278
Query: 418 SFTELREFV 426
S++ELR FV
Sbjct: 279 SYSELRAFV 287
>pdb|2YCB|A Chain A, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
pdb|2YCB|B Chain B, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
Length = 636
Score = 62.4 bits (150), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 59/227 (25%), Positives = 102/227 (44%), Gaps = 49/227 (21%)
Query: 117 DRSCPFYKKIPGTPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSHG---PIYCSP 173
D++ Y +P FT+D+ A +TH H DH G L + +G P+YC+
Sbjct: 218 DKNSYPYLNVP--EFTLDSL--------DAVIITHAHLDHSGFLPYLYHYGYDGPVYCTA 267
Query: 174 LTARLVRMCLLVNPSYIH----PLELNTEHVIDGVK------------------VTLLEA 211
T L+ + L + H PL N +HV VK +TL A
Sbjct: 268 PTRDLMTLLQLDHIDIAHREDEPLPFNVKHVKKSVKHTITLDYGEVTDIAPDIRLTLHNA 327
Query: 212 NHCPGAALIHFRLQDGQ-CYLHTGDFR--ASRLMQS----YPLLVNHRVNVLYLDTTYCN 264
H G+A+ H + DGQ ++TGDF+ SRL+++ +P R+ L +++TY
Sbjct: 328 GHILGSAMAHLHIGDGQHNMVYTGDFKYEQSRLLEAAANRFP-----RIETLVMESTYGG 382
Query: 265 PKYKFPSKEDVLNYVVRLTKNCLKKQPKTLVVVGAYSIGKESVFLAI 311
+ PS+ +V+ + L++ K L+ V +++G+ + +
Sbjct: 383 HEDVQPSRNRAEKELVKTIYSTLRRGGKILIPV--FAVGRAQELMIV 427
>pdb|2XR1|A Chain A, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
pdb|2XR1|B Chain B, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
Length = 640
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 52/201 (25%), Positives = 91/201 (45%), Gaps = 32/201 (15%)
Query: 144 CSAYFLTHFHYDHYGG---LGKRWSHGPIYCSPLTARLVRMCLL---------------- 184
A +TH H DH G L K GP+YC+P T L+ + L
Sbjct: 238 IDAVIVTHAHLDHQGLVPLLFKYGYEGPVYCTPPTRDLMVLLQLDYIDVAAKEGKKIPYE 297
Query: 185 ---VNPSYIHPLELNTEHVID---GVKVTLLEANHCPGAALIHFRLQDG-QCYLHTGDFR 237
V + H + L+ E V D +K+T A H G+A+ HF + DG + TGD++
Sbjct: 298 SGMVAKTLKHTIPLDYEEVTDIAPDIKLTFHNAGHILGSAISHFHIGDGLHNVVFTGDYK 357
Query: 238 ASRLMQSYPLLVNH--RVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTKNCLKKQPKTLV 295
+ P VN RV + + TY N P+ +D ++ + KN +++ +
Sbjct: 358 YEKTRLFDP-AVNKFPRVETVISEATYGNANAFQPALKDAEKHLQMVVKNTIER--GGIA 414
Query: 296 VVGAYSIGK-ESVFLAISKAL 315
V+ A+++G+ + V + + +++
Sbjct: 415 VIPAFAVGRSQEVMIVLEESI 435
>pdb|3AF5|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii
pdb|3AF6|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii Complexed With Rna-Analog
Length = 651
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 95/224 (42%), Gaps = 47/224 (20%)
Query: 123 YKKIPGTPFTVDAFRYGSIKGC-SAYFLTHFHYDHYGGLGKRWSH----GPIYCSPLTAR 177
YK P F F+Y +G A +TH H DH G L + + GPIY +P T
Sbjct: 229 YKAFPH--FDAPEFQYVLREGLLDAIIITHAHLDHCGMLPYLFRYNLFDGPIYTTPPTRD 286
Query: 178 LVRMCL--------------LVNPSYI-----HPLELNTEHVID---GVKVTLLEANHCP 215
L+ + L P I H + L+ V D +++TL A H
Sbjct: 287 LMVLLQKDFIEIQQSNGQDPLYRPRDIKEVIKHTITLDYGEVRDISPDIRLTLHNAGHIL 346
Query: 216 GAALIHFRLQDGQCYLH----TGDFR--ASRLMQ----SYPLLVNHRVNVLYLDTTYCNP 265
G+A++H + +G LH TGDF+ +RL++ +P R+ L +++TY
Sbjct: 347 GSAIVHLHIGNG---LHNIAITGDFKFIPTRLLEPANAKFP-----RLETLVMESTYGGA 398
Query: 266 KYKFPSKEDVLNYVVRLTKNCLKKQPKTLVVVGAYSIGKESVFL 309
+E+ ++ + N +K+ K L+ A +E + +
Sbjct: 399 NDIQMPREEAEKRLIEVIHNTIKRGGKVLIPAMAVGRAQEVMMV 442
>pdb|3IE1|A Chain A, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|B Chain B, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|C Chain C, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|D Chain D, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
Length = 431
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 85/205 (41%), Gaps = 37/205 (18%)
Query: 129 TPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSH---GPIYCSPLTARLVRMCL-- 183
PF D K A LTH H DH G L K + GP+Y + T L+ + L
Sbjct: 43 APFGFDP------KEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLED 96
Query: 184 ----LVNP-----------SYIHPLELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQ 228
+ P ++ PLE + + + +A H PG+A + +G+
Sbjct: 97 ALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFV-VAQGEGR 155
Query: 229 CYLHTGDF--RASRLM--QSYPLLVNHRVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTK 284
+++GD R ++ S P L +++ + TY + ++ P +E V ++ L K
Sbjct: 156 TLVYSGDLGNREKDVLPDPSLPPL----ADLVLAEGTYGDRPHR-PYRETVREFLEILEK 210
Query: 285 NCLKKQPKTLVVVGAYSIGKESVFL 309
L + K L+ A +E +++
Sbjct: 211 -TLSQGGKVLIPTFAVERAQEILYV 234
>pdb|3IE2|A Chain A, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|B Chain B, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|C Chain C, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|D Chain D, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 85/205 (41%), Gaps = 37/205 (18%)
Query: 129 TPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSH---GPIYCSPLTARLVRMCL-- 183
PF D K A LTH H DH G L K + GP+Y + T L+ + L
Sbjct: 43 APFGFDP------KEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLED 96
Query: 184 ----LVNP-----------SYIHPLELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQ 228
+ P ++ PLE + + + +A H PG+A + +G+
Sbjct: 97 ALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFV-VAQGEGR 155
Query: 229 CYLHTGDF--RASRLM--QSYPLLVNHRVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTK 284
+++GD R ++ S P L +++ + TY + ++ P +E V ++ L K
Sbjct: 156 TLVYSGDLGNREKDVLPDPSLPPL----ADLVLAEGTYGDRPHR-PYRETVREFLEILEK 210
Query: 285 NCLKKQPKTLVVVGAYSIGKESVFL 309
L + K L+ A +E +++
Sbjct: 211 -TLSQGGKVLIPTFAVERAQEILYV 234
>pdb|3IEK|A Chain A, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|B Chain B, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|C Chain C, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|D Chain D, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEL|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEM|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
Length = 431
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 85/205 (41%), Gaps = 37/205 (18%)
Query: 129 TPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSH---GPIYCSPLTARLVRMCL-- 183
PF D K A LTH H DH G L K + GP+Y + T L+ + L
Sbjct: 43 APFGFDP------KEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLED 96
Query: 184 ----LVNP-----------SYIHPLELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQ 228
+ P ++ PLE + + + +A H PG+A + +G+
Sbjct: 97 ALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFV-VAQGEGR 155
Query: 229 CYLHTGDF--RASRLM--QSYPLLVNHRVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTK 284
+++GD R ++ S P L +++ + TY + ++ P +E V ++ L K
Sbjct: 156 TLVYSGDLGNREKDVLPDPSLPPL----ADLVLAEGTYGDRPHR-PYRETVREFLEILEK 210
Query: 285 NCLKKQPKTLVVVGAYSIGKESVFL 309
L + K L+ A +E +++
Sbjct: 211 -TLSQGGKVLIPTFAVERAQEILYV 234
>pdb|3IDZ|A Chain A, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|B Chain B, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|C Chain C, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|D Chain D, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 85/205 (41%), Gaps = 37/205 (18%)
Query: 129 TPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSH---GPIYCSPLTARLVRMCL-- 183
PF D K A LTH H DH G L K + GP+Y + T L+ + L
Sbjct: 43 APFGFDP------KEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLED 96
Query: 184 ----LVNP-----------SYIHPLELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQ 228
+ P ++ PLE + + + +A H PG+A + +G+
Sbjct: 97 ALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFV-VAQGEGR 155
Query: 229 CYLHTGDF--RASRLM--QSYPLLVNHRVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTK 284
+++GD R ++ S P L +++ + TY + ++ P +E V ++ L K
Sbjct: 156 TLVYSGDLGNREKDVLPDPSLPPL----ADLVLAEGTYGDRPHR-PYRETVREFLEILEK 210
Query: 285 NCLKKQPKTLVVVGAYSIGKESVFL 309
L + K L+ A +E +++
Sbjct: 211 -TLSQGGKVLIPTFAVERAQEILYV 234
>pdb|3IE0|A Chain A, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|B Chain B, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|C Chain C, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|D Chain D, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 85/205 (41%), Gaps = 37/205 (18%)
Query: 129 TPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSH---GPIYCSPLTARLVRMCL-- 183
PF D K A LTH H DH G L K + GP+Y + T L+ + L
Sbjct: 43 APFGFDP------KEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLED 96
Query: 184 ----LVNP-----------SYIHPLELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQ 228
+ P ++ PLE + + + +A H PG+A + +G+
Sbjct: 97 ALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFV-VAQGEGR 155
Query: 229 CYLHTGDF--RASRLM--QSYPLLVNHRVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTK 284
+++GD R ++ S P L +++ + TY + ++ P +E V ++ L K
Sbjct: 156 TLVYSGDLGNREKDVLPDPSLPPL----ADLVLAEGTYGDRPHR-PYRETVREFLEILEK 210
Query: 285 NCLKKQPKTLVVVGAYSIGKESVFL 309
L + K L+ A +E +++
Sbjct: 211 -TLSQGGKVLIPTFAVERAQEILYV 234
>pdb|2DKF|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
Length = 431
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 83/205 (40%), Gaps = 37/205 (18%)
Query: 129 TPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSH---GPIYCSPLTARLVRMCL-- 183
PF D K A LTH H DH G L K + GP+Y + T L + L
Sbjct: 43 APFGFDP------KEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLXEIVLED 96
Query: 184 --------LVNP-------SYIHPLELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQ 228
P ++ PLE + + + +A H PG+A + +G+
Sbjct: 97 ALKVXDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFV-VAQGEGR 155
Query: 229 CYLHTGDF--RASRLM--QSYPLLVNHRVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTK 284
+++GD R ++ S P L +++ + TY + ++ P +E V ++ L K
Sbjct: 156 TLVYSGDLGNREKDVLPDPSLPPL----ADLVLAEGTYGDRPHR-PYRETVREFLEILEK 210
Query: 285 NCLKKQPKTLVVVGAYSIGKESVFL 309
L + K L+ A +E +++
Sbjct: 211 -TLSQGGKVLIPTFAVERAQEILYV 234
>pdb|3A4Y|A Chain A, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|B Chain B, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|C Chain C, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|D Chain D, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 34.7 bits (78), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 47/205 (22%), Positives = 84/205 (40%), Gaps = 37/205 (18%)
Query: 129 TPFTVDAFRYGSIKGCSAYFLTHFHYDHYGGLGKRWSH---GPIYCSPLTARLVRMCL-- 183
PF D K A LTH DH G L K + GP+Y + T L+ + L
Sbjct: 43 APFGFDP------KEVDAVLLTHAALDHVGRLPKLFREGYRGPVYATRATVLLMEIVLED 96
Query: 184 ----LVNP-----------SYIHPLELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQ 228
+ P ++ PLE + + + +A H PG+A + +G+
Sbjct: 97 ALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFV-VAQGEGR 155
Query: 229 CYLHTGDF--RASRLM--QSYPLLVNHRVNVLYLDTTYCNPKYKFPSKEDVLNYVVRLTK 284
+++GD R ++ S P L +++ + TY + ++ P +E V ++ L K
Sbjct: 156 TLVYSGDLGNREKDVLPDPSLPPL----ADLVLAEGTYGDRPHR-PYRETVREFLEILEK 210
Query: 285 NCLKKQPKTLVVVGAYSIGKESVFL 309
L + K L+ A +E +++
Sbjct: 211 -TLSQGGKVLIPTFAVERAQEILYV 234
>pdb|3G1P|A Chain A, Crystals Structure Of Phnp From E.Coli K-12
pdb|3G1P|B Chain B, Crystals Structure Of Phnp From E.Coli K-12
pdb|3P2U|A Chain A, Crystal Structure Of Phnp In Complex With Orthovanadate
pdb|3P2U|B Chain B, Crystal Structure Of Phnp In Complex With Orthovanadate
Length = 258
Score = 32.7 bits (73), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 66/160 (41%), Gaps = 22/160 (13%)
Query: 147 YFLTHFHYDHYGGLGK-RWSHG---PIYCSPLTARLVRMCLLVNPSYIHPLELNTEHVID 202
+ LTH+H DH GL RW G P+Y P + + HP L+ H ++
Sbjct: 72 FLLTHYHMDHVQGLFPLRWGVGDPIPVYGPPDEQGCDDL-------FKHPGLLDFSHTVE 124
Query: 203 GVKVTLLEANHCPGAALIHFRLQDGQCYLHTGDFRASRLMQSYPL-------LVNHRVNV 255
V L+ L H +L G L T R + L + L L N++ V
Sbjct: 125 PFVVFDLQGLQVTPLPLNHSKLTFGY-LLETAHSRVAWLSDTAGLPEKTLKFLRNNQPQV 183
Query: 256 LYLDTTYCNPKYKFPSKEDVLNYVVRLTKNCLKKQPKTLV 295
+ +D ++ P+ P LN V+ L N + + P+ ++
Sbjct: 184 MVMDCSH-PPRADAPRNHCDLNTVLAL--NQVIRSPRVIL 220
>pdb|2JFX|A Chain A, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate
pdb|2JFX|B Chain B, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate
pdb|2JFZ|A Chain A, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate And An Inhibitor
pdb|2JFZ|B Chain B, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate And An Inhibitor
pdb|2JFY|A Chain A, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate
pdb|2JFY|B Chain B, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate
pdb|2W4I|A Chain A, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate And An Inhibitor
pdb|2W4I|B Chain B, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate And An Inhibitor
pdb|2W4I|E Chain E, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate And An Inhibitor
pdb|2W4I|F Chain F, Crystal Structure Of Helicobacter Pylori Glutamate
Racemase In Complex With D-Glutamate And An Inhibitor
pdb|4B1F|A Chain A, Design Of Inhibitors Of Helicobacter Pylori Glutamate
Racemase As Selective Antibacterial Agents:
Incorporation Of Imidazoles Onto A Core
Pyrazolopyrimidinedione Scaffold To Improve
Bioavailabilty
pdb|4B1F|B Chain B, Design Of Inhibitors Of Helicobacter Pylori Glutamate
Racemase As Selective Antibacterial Agents:
Incorporation Of Imidazoles Onto A Core
Pyrazolopyrimidinedione Scaffold To Improve
Bioavailabilty
Length = 255
Score = 32.0 bits (71), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 47/118 (39%), Gaps = 16/118 (13%)
Query: 172 SPLTARLVRMCLLVNPSYIHPLELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQCYL 231
S L L+ C+ Y PLE+ E +I G L A G + HF L +
Sbjct: 152 SILEGELLETCM---HYYFTPLEILPEVIILGCTHFPLIAQKIEGYFMGHFALPTPPLLI 208
Query: 232 HTGDFRASRLMQSYPLLVNHRVNVLYLDTTYCN-PKYKFPSKEDVLNYVVRLTKNCLK 288
H+GD L Q Y L N C PK +F + DV+ ++ R K LK
Sbjct: 209 HSGDAIVEYLQQKYALKNNA-----------CTFPKVEFHASGDVI-WLERQAKEWLK 254
>pdb|2R9Z|A Chain A, Glutathione Amide Reductase From Chromatium Gracile
pdb|2R9Z|B Chain B, Glutathione Amide Reductase From Chromatium Gracile
pdb|2RAB|A Chain A, Structure Of Glutathione Amide Reductase From Chromatium
Gracile In Complex With Nad
pdb|2RAB|B Chain B, Structure Of Glutathione Amide Reductase From Chromatium
Gracile In Complex With Nad
Length = 463
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 7/70 (10%)
Query: 286 CLKKQPKTLVVVGAYSIGKESVFLAISKALGVKIYANASRRRVLQSFDWPELSG----NL 341
L++QPK + ++GA IG E + ++ G ++ A R+L FD P LS N+
Sbjct: 161 ALQQQPKRVAIIGAGYIGIE--LAGLLRSFGSEVTVVALEDRLLFQFD-PLLSATLAENM 217
Query: 342 CTQGNDTLLH 351
QG +T L
Sbjct: 218 HAQGIETHLE 227
>pdb|3BK1|A Chain A, Crystal Structure Analysis Of Rnase J
pdb|3BK2|A Chain A, Crystal Structure Analysis Of The Rnase JUMP COMPLEX
Length = 562
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 48/109 (44%), Gaps = 17/109 (15%)
Query: 144 CSAYFLTHFHYDHYGGL--------GKRWSHGPIYCSPLTARLVRMCLL---VNPSYIHP 192
A+ LTH H DH GGL GK S PIY + LT L+R L + P +
Sbjct: 75 IKAWVLTHGHEDHIGGLPFLLPXIFGKE-SPVPIYGARLTLGLLRGKLEEFGLRPGAFNL 133
Query: 193 LELNTEHVIDGVK---VTLLEANH-CPGAALIHFRLQDGQCYLHTGDFR 237
E++ + I + + L H P + + R G +HTGDF+
Sbjct: 134 KEISPDDRIQVGRYFTLDLFRXTHSIPDNSGVVIRTPIG-TIVHTGDFK 181
>pdb|1ZYZ|A Chain A, Structures Of Yeast Ribonucloetide Reductase I
pdb|1ZYZ|B Chain B, Structures Of Yeast Ribonucloetide Reductase I
pdb|1ZZD|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVS|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVT|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVU|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVV|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVW|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVX|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVY|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2EUD|A Chain A, Structures Of Yeast Ribonucleotide Reductase I Complexed
With Ligands And Subunit Peptides
pdb|2ZLF|A Chain A, The Structural Basis For Peptidomimetic Inhibition Of
Eukaryotic Ribonucleotide Reductase
pdb|2ZLG|A Chain A, The Structual Basis For Peptidomimetic Inhibition Of
Eukaryotic Ribonucleotide Reductase
pdb|3K8T|A Chain A, Structure Of Eukaryotic Rnr Large Subunit R1 Complexed
With Designed Adp Analog Compound
pdb|3PAW|A Chain A, Low Resolution X-Ray Crystal Structure Of Yeast Rnr1p With
Datp Bound In The A-Site
pdb|3PAW|B Chain B, Low Resolution X-Ray Crystal Structure Of Yeast Rnr1p With
Datp Bound In The A-Site
pdb|3PAW|C Chain C, Low Resolution X-Ray Crystal Structure Of Yeast Rnr1p With
Datp Bound In The A-Site
pdb|3PAW|D Chain D, Low Resolution X-Ray Crystal Structure Of Yeast Rnr1p With
Datp Bound In The A-Site
pdb|3S87|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 With Dgtp
And Adp
pdb|3S8B|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 With Amppnp
And Cdp
pdb|3RSR|A Chain A, Crystal Structure Of 5-Nitp Inhibition Of Yeast
Ribonucleotide Reductase
Length = 888
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 30/48 (62%), Gaps = 3/48 (6%)
Query: 168 PIYCSPLTARLVRMCLLVNPSYIHPLELNTEHVIDGV--KVTLLEANH 213
P+ +TAR+ R+C ++P +I +++ T+ +I GV VT +E ++
Sbjct: 12 PVQFDKITARISRLCYGLDPKHIDAVKV-TQRIISGVYEGVTTIELDN 58
>pdb|3S8A|A Chain A, Structure Of Yeast Ribonucleotide Reductase R293a With
Dgtp
pdb|3S8C|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 R293a With
Amppnp And Cdp
Length = 888
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 30/48 (62%), Gaps = 3/48 (6%)
Query: 168 PIYCSPLTARLVRMCLLVNPSYIHPLELNTEHVIDGV--KVTLLEANH 213
P+ +TAR+ R+C ++P +I +++ T+ +I GV VT +E ++
Sbjct: 12 PVQFDKITARISRLCYGLDPKHIDAVKV-TQRIISGVYEGVTTIELDN 58
>pdb|3TB9|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 Q288a With
Amppnp And Cdp
pdb|3TBA|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 Q288a With
Dgtp And Adp
Length = 888
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 30/48 (62%), Gaps = 3/48 (6%)
Query: 168 PIYCSPLTARLVRMCLLVNPSYIHPLELNTEHVIDGV--KVTLLEANH 213
P+ +TAR+ R+C ++P +I +++ T+ +I GV VT +E ++
Sbjct: 12 PVQFDKITARISRLCYGLDPKHIDAVKV-TQRIISGVYEGVTTIELDN 58
>pdb|3O0H|A Chain A, Crystal Structure Of Glutathione Reductase From Bartonella
Henselae
pdb|3O0H|B Chain B, Crystal Structure Of Glutathione Reductase From Bartonella
Henselae
Length = 484
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 287 LKKQPKTLVVVGAYSIGKESVFLAISKALGVKIYANASRRRVLQSFDW 334
L+K PK++V+VG IG E F I LGVK +L++FD+
Sbjct: 187 LEKLPKSIVIVGGGYIGVE--FANIFHGLGVKTTLLHRGDLILRNFDY 232
>pdb|3ZQ4|A Chain A, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|C Chain C, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|D Chain D, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|E Chain E, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
Length = 555
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 46/105 (43%), Gaps = 13/105 (12%)
Query: 141 IKGCSAYFLTHFHYDHYGGLG--KRWSHGPIYCSPLTARLVRMCLLVNPSYIHPLELNTE 198
IKG F+TH H DH GG+ R + P+Y L L+R L + + +LN
Sbjct: 67 IKGL---FITHGHEDHIGGIPYLLRQVNIPVYGGKLAIGLLRNKLEEH-GLLRQTKLNII 122
Query: 199 HVIDGVK-----VTLLEANH-CPGAALIHFRLQDGQCYLHTGDFR 237
D VK V+ H P + I + G +HTGDF+
Sbjct: 123 GEDDIVKFRKTAVSFFRTTHSIPDSYGIVVKTPPGNI-VHTGDFK 166
>pdb|2ZWR|A Chain A, Crystal Structure Of Ttha1623 From Thermus Thermophilus
Hb8
pdb|2ZWR|B Chain B, Crystal Structure Of Ttha1623 From Thermus Thermophilus
Hb8
pdb|2ZZI|A Chain A, Crystal Structure Of Ttha1623 In A Di-Iron-Bound Form
pdb|2ZZI|B Chain B, Crystal Structure Of Ttha1623 In A Di-Iron-Bound Form
Length = 207
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 44/109 (40%), Gaps = 22/109 (20%)
Query: 146 AYFLTHFHYDHYGGLGKRWS--HGPIYCSP----------LTARLVRMCLLVNPSYIHPL 193
A LTH H+DH G + P+Y P L AR + + P + PL
Sbjct: 49 AILLTHAHFDHVGAVAPLVEALDLPVYLHPLDLPLYEGADLAARAWGLAIPKPPLPVRPL 108
Query: 194 ELNTEHVIDGVKVTLLEANHCPGAALIHFRLQDGQ-CYLHTGD--FRAS 239
E +G+++ + H PG + H D + + +GD FR S
Sbjct: 109 E-------EGMRLFGFQVLHLPGHSPGHVAFYDPEGAQVFSGDLLFRGS 150
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.138 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,716,282
Number of Sequences: 62578
Number of extensions: 513650
Number of successful extensions: 1331
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1302
Number of HSP's gapped (non-prelim): 31
length of query: 428
length of database: 14,973,337
effective HSP length: 102
effective length of query: 326
effective length of database: 8,590,381
effective search space: 2800464206
effective search space used: 2800464206
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)